[CP2K:2055] Re: compilation HFX - sopt

Jörg Saßmannshausen jorg.sassm... at strath.ac.uk
Tue May 5 16:26:05 CEST 2009


Dear Marc,

are you sure you got the libstdc++ actually installed?
As:
  ld: cannot find -lstdc++
looks like it the linker cannot find it and usually this would be in the 
linker search path.

You don't need these ones:
/usr/lib/gcc/x86_64-linux-gnu/4.1.2/32/libstdc++.a
/usr/lib/libstdc++.so.6
(are these files actually there??)

all you need to add is:
-lstdc++

Which distro are you using?
On rpm based distros you can do:
rpm -qa | grep libstdc*

on dpk distros you can try:
dpkg -l libstdc*

Just some sentiments.

All the best from a rainy Glasgow!

Jörg


marc wrote:
> thanks you for the answer manuel.  I left out the comments(#) so I
> used this arch file:
> 
> CC       = cc
> CPP      =
> FC       = g95
> LD       = g95
> AR       = ar -r
> DFLAGS   = -D__G95 -D__FFTSG -D__FFTW3 -D__LIBINT
> CPPFLAGS =
> FCFLAGS  = $(DFLAGS) -ffree-form -O2 -ffast-math -march=opteron -cpp -
> I/usr/include
> LDFLAGS  = $(FCFLAGS)
> LIBPATH  = /home/marc/build/libraries
> LIBS     = $(LIBPATH)/lapack-3.2.1/lapack_G95.a \
>            $(LIBPATH)/BLAS/blas_G95.a \
>            $(LIBPATH)/libint-1.1.2/compilation_folder/lib/libderiv.a \
>            $(LIBPATH)/libint-1.1.2/compilation_folder/lib/libint.a \
>            $(LIBPATH)/fftw-3.2.1/compilation_folder/lib/libfftw3.a \
>            /usr/lib/gcc/x86_64-linux-gnu/4.1.2/32/libstdc++.a \
>            /usr/lib/libstdc++.so.6 \
>            -lstdc++ -lpthread
> 
> 
> OBJECTS_ARCHITECTURE = machine_g95.o
> 
> ,but now the error is
> 
> Warning (158): INTENT(OUT) variable 'e' at (1) is never set
> ar: creating /home/marc/build/cp2k/2009-04-27/makefiles/../lib/Linux-
> x86-64-g95/sopt/libcp2k_lib.a
> ld: cannot find -lstdc++
> make[1]: *** [/home/marc/build/cp2k/2009-04-27/makefiles/../exe/Linux-
> x86-64-g95/cp2k.sopt] Error 1
> make: *** [build] Error 2
> 
> So if you say _gxx_personality errors mean that -lstdc++ cannot be
> found, this is apparently the same problem now...  no?  Actually I
> already encountered this error before (ld: cannot find -lstdc++), so I
> tried to "add" it by including the libraries I originally commented
> out, but as you can see I get more or less the same error.  So I think
> the main problem is that for some reason I don't succeed in letting
> cp2k to recognize -lstdc++.  I've looked at other input files but they
> all just mention this... as is explained in the README of the
> libint_tools.
> 
> thank you very much for your comments on this.
> 
> ciao
> 
> marc
> 
> 
> 
> 
> On 5 mei, 14:03, mguidon <manuel... at gmail.com> wrote:
>> Hi Marc.
>>
>> Your first way of doing it was correct. Just remove the # comments
>> from your arch file (otherwise, libraries that come afterwards are
>> ignored)
>>
>> In general, _gxx_personality errors mean, that -lstdc++ could not be
>> found.
>>
>> Cheers
>>
>> Manuel
>>
>> On May 5, 12:56 pm, marc <marcvanh... at gmail.com> wrote:
>>
>>> CC       = cc
>>> CPP      =
>>> Dear all,
>>> I succesfully compiled cp2k.sopt (no libint) on a x86-64 linux machine
>>> with g95.  Now I want to include hf exchange using libint 1.1.2.  My
>>> arch-file (Linux-x86-64-g95.sopt) looks like this.
>>> FC       = g95
>>> LD       = g95
>>> AR       = ar -r
>>> DFLAGS   = -D__G95 -D__FFTSG -D__FFTW3 -D__LIBINT
>>> CPPFLAGS =
>>> FCFLAGS  = $(DFLAGS) -ffree-form -O2 -ffast-math -march=opteron -cpp -
>>> I/usr/include
>>> LDFLAGS  = $(FCFLAGS)
>>> LIBPATH  = /home/marc/build/libraries
>>> LIBS     = $(LIBPATH)/lapack-3.2.1/lapack_G95.a \
>>>            $(LIBPATH)/BLAS/blas_G95.a \
>>>            $(LIBPATH)/libint-1.1.2/compilation_folder/lib/libderiv.a \
>>>            $(LIBPATH)/libint-1.1.2/compilation_folder/lib/libint.a \
>>>            $(LIBPATH)/fftw-3.2.1/compilation_folder/lib/libfftw3.a \
>>>            #/usr/lib/gcc/x86_64-linux-gnu/4.1.2/32/libstdc++.a \
>>>            #/usr/lib/gcc-lib/x86_64-linux-gnu/3.3.6/libstdc++.so \
>>>            #/usr/lib/libstdc++.so.5 \
>>>            -lstdc++ -lpthread
>>> OBJECTS_ARCHITECTURE = machine_g95.o
>>> Initially I compiled libint just with a prefix and the option --enable
>>> deriv.  Then I got an error like this:
>>> I get errors like this:
>>> ar: creating /home/marc/build/cp2k/2009-04-27/makefiles/../lib/Linux-
>>> x86-64-g95/sopt/libcp2k_lib.a
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(init_libderiv.o):(.eh_frame+0x12): undefined reference to
>>> `__gxx_personality_v0'
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(d12hrr_order_0000.o):(.eh_frame+0x12): undefined reference
>>> to `__gxx_personality_v0'
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(d12hrr_order_00d0.o):(.eh_frame+0x12): undefined reference
>>> to `__gxx_personality_v0'
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(d12hrr_order_00dd.o):(.eh_frame+0x12): undefined reference
>>> to `__gxx_personality_v0'
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(d12hrr_order_00dp.o):(.eh_frame+0x12): undefined reference
>>> to `__gxx_personality_v0'
>>> /home/marc/build/libraries/libint-1.1.2/compilation_folder/lib/
>>> libderiv.a(d12hrr_order_00p0.o):(.eh_frame+0x12): more undefined
>>> references to `__gxx_personality_v0' follow
>>> make[1]: *** [/home/marc/build/cp2k/2009-04-27/makefiles/../exe/Linux-
>>> x86-64-g95/cp2k.sopt] Error 1
>>> make: *** [build] Error 2
>>> Then, a collegue thought that the problem could be in the underscores,
>>> so I compiled libint again with the options " --enable-deriv FFLAGS='-
>>> fno-second-underscore -g -O2' ".  The previous errors are now gone,
>>> but now I get an even more strange error like this:
>>> Warning (158): INTENT(OUT) variable 'e' at (1) is never set
>>> ar: creating /home/marc/build/cp2k/2009-04-27/makefiles/../lib/Linux-
>>> x86-64-g95/sopt/libcp2k_lib.a
>>> g95:  : No such file or directory
>>> make[1]: *** [/home/marc/build/cp2k/2009-04-27/makefiles/../exe/Linux-
>>> x86-64-g95/cp2k.sopt] Error 1
>>> make: *** [build] Error 2
>>> cp2k can't find g95??  I started compiling in the first place, so I
>>> definitely symlinked my g95-executable (/opt/g95/0.91_32/bin/x86_64-
>>> suse-linux-gnu-g95) with the command "g95" correct, so I don't really
>>> understand this error message...
>>> Any ideas?
>>> thanks in advance!!
> > 

-- 
*************************************************************
Jörg Saßmannshausen
Research Fellow
University of Strathclyde
Department of Pure and Applied Chemistry
295 Cathedral St.
Glasgow
G1 1XL

email: jorg.sassm... at strath.ac.uk
web: http://sassy.formativ.net

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